Shuffle Update after installing iTunes 5.x and iPod 1.1.2

I installed iTunes 5.0.1.4 and ran the iPod Updater 2005-09-23 and now my iTunes will not update the songs on my iPod Shuffle (it actually erased my songs). I have totally uninstalled iTunes and the Updater 2005-09-23 and re-installed them per another post on the forum. Prior to installing the new iTunes everything was working okay. I should also mention that the amber and green lights flash when I try to play anything - i.e. maybe the iTunes download was coincidental and not the problem. Any insight or help would be appreciated.

I have tried the following:
1) Uninstalled the iPod Updater.
2) Uninstalled iTunes 5.0.x
3) Rebooted
4) Deleted the C:\Program Files\iPod folder
5) Reinstalled iTunes 4.7.x from my IPS install CD
6) Reinstalled the iPod software from the CD
In the middle of the reinstall of the Windows iPod software it asks you to connect the IPS to see if it needs formated. It recognized my iPod and said that it did in fact need to be formated. I gave it the Ok and it came back telling me that it had trouble communicating with the IPS and to disconnect and reconnect. I did so, same story again.
It seems that iTunes 5 and the latest updater hosed the IPS hardware or firmware somehow. Needless to say, I'm not happy.

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